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Structure of S. pombe MMI1

Analyse Structure of S. pombe MMI1 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 6FPP
Type: protein
Length: 310 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Yth domain-containing protein MMI1
UniProt: O74958
Ligands: MG
Pockets: 4 · best druggability 0.53

Structure

x-ray diffraction · 1 distinct chain · 32% helix, 33% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B	Yth domain-containing protein MMI1	protein	155	32% helix, 33% strand	O74958

Ligands and binding sites

MG · Magnesium ion · metal · chains B
GOL · Glycerol · additive · 4 copies · chains A, B

Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.

Pockets

4 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	196	0.53	0.78	24	empty
2	60	0.40	0.81	17	empty
3	113	0.40	0.75	18	empty
4	70	0.29	0.74	17	empty

Interfaces

1 interface between chains.

A–B · 437 Å² buried · 3 hydrogen bonds · protein-protein

Compared structures

6FPP · Structure of S. pombe Mmi1 · the same entry in another collection · chain B against B, TM-score 1.00
O74958 · AlphaFold monomer V2.0 prediction for RNA binding exosome specificity factor MMI1 (O74958) · a predicted model of the same protein · chain A against A, TM-score 0.98

Analyse

Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
Every structure of UniProt O74958
Elsewhere: RCSB PDB 6FPP · PDBe 6FPP · UniProt O74958

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